IFAD Backend

This is the backend server that handles the ingestion of relevant data and handles querying of annotations and gene info.

Dependencies

To get started, you'll need to have the following tools installed:

• Node.js (v12 or later)
• Yarn

Running Locally

To launch the development server, run the following commands.

# Install dependencies
yarn

# Launch the server
yarn start

This will start the API server at localhost:3000. At this point, you can launch the frontend in order to visually query the data.

Running Unit Tests

To run unit tests, just run

yarn test

Launching in Production Mode

Additional Dependency

If you're working with IFAD deployments, you'll also need to have the following installed:

• Docker
• docker-compose

This application is deployed in production using Docker with the help of docker-compose. Production builds are uploaded as Docker images to Docker Hub. To download and launch the latest release, run

docker-compose up -d && docker-compose logs -f

This command will do the following:

• docker-compose up -d
  • This will download (if necessary) the production image specified in the docker-compose.yml file and launch it in the background.
• docker-compose logs -f
  • This will open the logs for the production server and follow them for as long as the server is running or until exited. Quitting the logs will not kill the server.

One thing to note is that if you use -d then you'll need to explicitly shut down the server when you're done with it using docker-compose down.

Creating a new Release

Suppose you want to create a new release, say, v0.3.0. You'd first prepare and tag a release in the frontend, then the backend. To prepare a release, make sure you have any changes you want in the release tested and merged into master. Then, in the frontend repository, you'd tag the git commit and build the frontend docker image, like so:

# In the frontend repository
git tag -a "v0.3.0" -m "Bump version to v0.3.0"
git push origin v0.3.0
docker build -t <docker repository>/ifad-frontend:v0.3.0 .
docker push <docker repository>/ifad-frontend:v0.3.0

Then, you'd prepare the backend repository in the same way, by testing and merging any changes you want into master. However, this time you need to make sure to update the backend's Dockerfile and docker-compose.yml with the new version.

Dockerfile:

- FROM <docker repository>/ifad-frontend:v0.2.2 AS frontend
+ FROM <docker repository>/ifad-frontend:v0.3.0 AS frontend

docker-compose.yml:

-    image: <docker repository>/ifad-backend:v0.2.2
+    image: <docker repository>/ifad-backend:v0.3.0

Commit those changes to master, then tag and build it the same way.

# In the backend repository
git tag -a "v0.3.0" -m "Bump version to v0.3.0"
git push origin v0.3.0
docker build -t <docker repository>/ifad-backend:v0.3.0 .
docker push <docker repository>/ifad-backend:v0.3.0

Deploying the new Release

To deploy the new docker image we just created, SSH into the deployment server. If ifad-backend has already been cloned there, navigate to it, otherwise, clone it first. Otherwise, make sure to git pull the latest version.

Note: In reality, you don't need the full source of the project on the production machine, but by cloning the git project you can easily get the most up-to-date version of the docker-compose.yml file on the machine.

Once you're in the ifad-backend directory with the docker-compose.yml file, just run the following to deploy the latest release:

docker-compose up -d && docker-compose logs -f

Once you see from the logs that the server has successfully launched, you can safely quit the logs using Ctrl-C and the server will continue running.